Software and R packages
Software
These links are provided for information only, they are not needed now for the practical but if you finish any exercises early you may want to investigate the tools/resources a little further by checking out their websites, user guides, and/or their main publications.
BUSCO - Benchmarking Universal Single-Copy Orthologues
MAFFT - multiple sequence alignment tool
RAxML - maximum likelihood phylogenies
Treerecs - tree reconciliation software
TrimAl - alignment filtering tool
R and packages
R
ape package
BgeeCall package
BgeeDB package
ggfortify package